Mesoscope student intern Thao P. Do created in collaboration with Graham Johnson for the UCSF Chimera 2014 Holiday card as described by Tom Goddard and Elaine Meng from RBVI below. Click the USE tab to see how Chimera can be used to view and analyze cellPACK models. Please feel free to print the card for your emergency Holiday needs.
A cellPACK model of bacterium Mycoplasma mycoides
Behold a computer-generated model of the tiny bacterium Mycoplasma mycoides. The long orange strand is its circular DNA genome, a million basepairs encoding about 1000 genes. This bacterium lacks a cell wall but is covered with lipoglycans, shown here as green filaments. In red, yellow, blue, and purple are various proteins, represented by the structures of homologous proteins from other organisms. Together, these depict the molecular crowding in cells. This model was made with the cellPACK* software (cellPACK.org) described in cellPACK: A virtual mesoscope to model and visualize structural systems biology, Johnson et al., Nat Methods (2014). cellPACK models can be viewed interactively with the program UCSF Chimera (rbvi.ucsf.edu/chimera) from the Resource for Biocomputing, Visualization, and Informatics**.
Funding: * NSF Predoctoral Fellowship (07576), NIH P41GM103426 & P50GM103368, Autodesk, & Mary Anne Koda-Kimble Seed Award for Innovation. ** NIH/NIGMS Biomedical Technology Research Center (P41GM103311).
M. mycoides in Snow by RBVI associates Graham T. Johnson & Thao P. Do of mesoscope.org and thaopdo.com, ©2014